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Structure of a putative epoxide hydrolase t131d mutant from Pseudomonas aeruginosa, with bound MFA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4B9A PDB ENTRY 4B9A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 0.1 M LI2SO4, 1.25M (NH4)2SO4, 0.1 M TRIS HCL PH 8.5
Crystal Properties Matthews coefficient Solvent content 3.67 66.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.86 α = 90 b = 83.86 β = 90 c = 140.57 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 225 mm CCD 2012-03-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-3 MAX II I911-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.55 17.7 97.5 0.1 10.7 4.9 71161 2 15.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.55 1.63 95.8 0.81 1.9 4.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 4B9A 1.55 17.57 67543 3590 97.01 0.13908 0.13735 0.1503 0.17094 0.1809 RANDOM 14.469
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.01 0.01 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.584 r_sphericity_free 31.03 r_dihedral_angle_4_deg 18.241 r_dihedral_angle_3_deg 11.077 r_sphericity_bonded 10.884 r_dihedral_angle_1_deg 5.312 r_rigid_bond_restr 4.87 r_angle_refined_deg 1.761 r_angle_other_deg 1.13 r_symmetry_vdw_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.584 r_sphericity_free 31.03 r_dihedral_angle_4_deg 18.241 r_dihedral_angle_3_deg 11.077 r_sphericity_bonded 10.884 r_dihedral_angle_1_deg 5.312 r_rigid_bond_restr 4.87 r_angle_refined_deg 1.761 r_angle_other_deg 1.13 r_symmetry_vdw_refined 0.304 r_nbd_refined 0.27 r_nbd_other 0.237 r_nbtor_refined 0.183 r_symmetry_vdw_other 0.17 r_xyhbond_nbd_refined 0.163 r_xyhbond_nbd_other 0.134 r_chiral_restr 0.12 r_nbtor_other 0.11 r_symmetry_hbond_refined 0.039 r_bond_refined_d 0.017 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2329 Nucleic Acid Atoms Solvent Atoms 373 Heterogen Atoms 81
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling REFMAC phasing